CRAN Package Check Results for Package NetworkInference

Last updated on 2018-10-17 13:46:30 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.2.2 47.29 71.76 119.05 OK
r-devel-linux-x86_64-debian-gcc 1.2.2 41.53 56.32 97.85 OK
r-devel-linux-x86_64-fedora-clang 1.2.2 160.88 OK
r-devel-linux-x86_64-fedora-gcc 1.2.2 145.68 OK
r-devel-windows-ix86+x86_64 1.2.2 136.00 164.00 300.00 OK
r-patched-linux-x86_64 1.2.2 33.87 66.13 100.00 OK
r-patched-solaris-x86 1.2.2 164.40 OK
r-release-linux-x86_64 1.2.2 33.47 65.38 98.85 OK
r-release-windows-ix86+x86_64 1.2.2 155.00 165.00 320.00 OK
r-release-osx-x86_64 1.2.2 ERROR
r-oldrel-windows-ix86+x86_64 1.2.2 137.00 163.00 300.00 OK
r-oldrel-osx-x86_64 1.2.2 ERROR

Additional issues

clang-ASAN

Check Details

Version: 1.2.2
Check: tests
Result: ERROR
     Running ‘testthat.R’ [2s/2s]
    Running the tests in ‘tests/testthat.R’ failed.
    Last 13 lines of output:
     23: tryCatchList(expr, classes, parentenv, handlers)
     24: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
     25: test_code(NULL, exprs, env)
     26: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     27: force(code)
     28: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter, { lister$start_file(basename(path)) source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap) end_context() })
     29: FUN(X[[i]], ...)
     30: lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     31: force(code)
     32: with_reporter(reporter = current_reporter, results <- lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap))
     33: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     34: test_dir(path = test_path, reporter = reporter, env = env, filter = filter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     35: test_package_dir(package = package, test_path = test_path, filter = filter, reporter = reporter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     36: test_check("NetworkInference")
     An irrecoverable exception occurred. R is aborting now ...
Flavor: r-release-osx-x86_64

Version: 1.2.2
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
     5: withVisible(eval(expr, envir, enclos))
     6: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)
     7: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler))
     8: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
     9: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos, debug = debug, last = i == length(out), use_try = stop_on_error != 2L, keep_warning = keep_warning, keep_message = keep_message, output_handler = output_handler, include_timing = include_timing)
    10: evaluate::evaluate(...)
    11: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options))
    12: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options)))
    13: block_exec(params)
    14: call_block(x)
    15: process_group.block(group)
    16: process_group(group)
    17: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { setwd(wd) cat(res, sep = "\n", file = output %n% "") message("Quitting from lines ", paste(current_lines(i), collapse = "-"), " (", knit_concord$get("infile"), ") ") })
    18: process_file(text, output)
    19: knit(input, text = text, envir = envir, encoding = encoding, quiet = quiet)
    20: knit2html(..., force_v1 = TRUE)
    21: (if (grepl("\\.[Rr]md$", file)) knit2html_v1 else if (grepl("\\.[Rr]rst$", file)) knit2pandoc else knit)(file, encoding = encoding, quiet = quiet, envir = globalenv())
    22: vweave(...)
    23: engine$weave(file, quiet = quiet, encoding = enc)
    24: doTryCatch(return(expr), name, parentenv, handler)
    25: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    26: tryCatchList(expr, classes, parentenv, handlers)
    27: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) find_vignette_product(name, by = "weave", engine = engine)}, error = function(e) { stop(gettextf("processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)), domain = NA, call. = FALSE)})
    28: buildVignettes(dir = "/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.5/NetworkInference.Rcheck/vign_test/NetworkInference")
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-release-osx-x86_64

Version: 1.2.2
Check: examples
Result: ERROR
    Running examples in ‘NetworkInference-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: is.diffnet
    > ### Title: Is the object of class diffnet?
    > ### Aliases: is.diffnet
    >
    > ### ** Examples
    >
    >
    > data(cascades)
    > result <- netinf(cascades, n_edges = 6, params = 1)
    Initializing trees...
    Getting possible edges...
    0% 10 20 30 40 50 60 70 80 90 100%
    [----|----|----|----|----|----|----|----|----|----|
    **************************************************|
    Inferring 6 edges...
    0% 10 20 30 40 50 60 70 80 90 100%
    [----|----|----|----|----|----|----|----|----|----|
    ********
     *** caught segfault ***
    address 0x1700000000, cause 'memory not mapped'
    
    Traceback:
     1: .Call(`_NetworkInference_netinf_`, cascade_nodes, cascade_times, n_edges, model, params, quiet, auto_edges, cutoff)
     2: netinf_(cascade_nodes = cascade_nodes, cascade_times = cascades$cascade_times, model = model, params = params, n_edges = n_edges, quiet = quiet, auto_edges = auto_edges, cutoff = cutoff)
     3: netinf(cascades, n_edges = 6, params = 1)
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-oldrel-osx-x86_64

Version: 1.2.2
Check: tests
Result: ERROR
     Running ‘testthat.R’ [2s/2s]
    Running the tests in ‘tests/testthat.R’ failed.
    Last 13 lines of output:
     24: tryCatchList(expr, classes, parentenv, handlers)
     25: tryCatch(withCallingHandlers({ eval(code, test_env) if (!handled && !is.null(test)) { skip_empty() }}, expectation = handle_expectation, skip = handle_skip, warning = handle_warning, message = handle_message, error = handle_error), error = handle_fatal, skip = function(e) { })
     26: test_code(NULL, exprs, env)
     27: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     28: force(code)
     29: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter, { lister$start_file(basename(path)) source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap) end_context() })
     30: FUN(X[[i]], ...)
     31: lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     32: force(code)
     33: with_reporter(reporter = current_reporter, results <- lapply(paths, test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap))
     34: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     35: test_dir(path = test_path, reporter = reporter, env = env, filter = filter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     36: test_package_dir(package = package, test_path = test_path, filter = filter, reporter = reporter, ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning, wrap = wrap)
     37: test_check("NetworkInference")
     An irrecoverable exception occurred. R is aborting now ...
Flavor: r-oldrel-osx-x86_64

Version: 1.2.2
Check: re-building of vignette outputs
Result: WARN
    Error in re-building vignettes:
     ...
     6: withVisible(eval(expr, envir, enclos))
     7: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)
     8: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler))
     9: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
    10: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos, debug = debug, last = i == length(out), use_try = stop_on_error != 2L, keep_warning = keep_warning, keep_message = keep_message, output_handler = output_handler, include_timing = include_timing)
    11: evaluate::evaluate(...)
    12: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options))
    13: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message), stop_on_error = if (options$error && options$include) 0L else 2L, output_handler = knit_handlers(options$render, options)))
    14: block_exec(params)
    15: call_block(x)
    16: process_group.block(group)
    17: process_group(group)
    18: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group), error = function(e) { setwd(wd) cat(res, sep = "\n", file = output %n% "") message("Quitting from lines ", paste(current_lines(i), collapse = "-"), " (", knit_concord$get("infile"), ") ") })
    19: process_file(text, output)
    20: knit(input, text = text, envir = envir, encoding = encoding, quiet = quiet)
    21: knit2html(..., force_v1 = TRUE)
    22: (if (grepl("\\.[Rr]md$", file)) knit2html_v1 else if (grepl("\\.[Rr]rst$", file)) knit2pandoc else knit)(file, encoding = encoding, quiet = quiet, envir = globalenv())
    23: vweave(...)
    24: engine$weave(file, quiet = quiet, encoding = enc)
    25: doTryCatch(return(expr), name, parentenv, handler)
    26: tryCatchOne(expr, names, parentenv, handlers[[1L]])
    27: tryCatchList(expr, classes, parentenv, handlers)
    28: tryCatch({ engine$weave(file, quiet = quiet, encoding = enc) setwd(startdir) find_vignette_product(name, by = "weave", engine = engine)}, error = function(e) { stop(gettextf("processing vignette '%s' failed with diagnostics:\n%s", file, conditionMessage(e)), domain = NA, call. = FALSE)})
    29: buildVignettes(dir = "/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.4/NetworkInference.Rcheck/vign_test/NetworkInference")
    An irrecoverable exception occurred. R is aborting now ...
Flavor: r-oldrel-osx-x86_64